Diverse, yet-to-be-cultured members of the Rubrobacter subdivision of the Actinobacteria are widespread in Australian arid soils.


:Phylogenetic analyses of ribosomal RNA gene sequences (rDNAs) retrieved from an Australian desert soil sample (Sturt National Park) revealed the presence of a number of clones which branched deeply from the high GC Gram-positive division line of descent. The most abundant group of these clones were related to Rubrobacter. An oligonucleotide probe was designed to have broad specificity to Rubrobacter and relatives. This probe was used to interrogate eight rDNA libraries representing four distinct land forms within the Australian arid zone. Relative abundance of Rubrobacter-relatives in these samples ranged from 2.6 to 10.2%. Clones from these libraries were selected for sequence analysis on the basis of a heteroduplex mobility assay to maximise the diversity represented in the sample. Phylogenetic analyses of these rDNA clones and Rubrobacter-related clones reported in the literature show strong support for three distinct groups. Database-searching revealed 'Rubrobacteria' were relatively abundant in a number of published soil rDNA libraries but absent from others. A PCR assay for group-1 'Rubrobacteria' was used to test for their presence in 21 environmental samples. Only marine and arid-zone soil samples gave positive PCR results. Taken together these results indicate 'Rubrobacteria' are a widespread group of variable abundance and diversity.


FEMS Microbiol Ecol


Holmes AJ,Bowyer J,Holley MP,O'Donoghue M,Montgomery M,Gillings MR




Has Abstract


2000-08-01 00:00:00














  • A cold-loving crenarchaeon is a substantial part of a novel microbial community in cold sulphidic marsh water.

    abstract::In this paper, we report the identification and first characterization of a novel, cold-loving, prokaryotic community thriving among white-greenish 'streamers' in the cold (c. 10 degrees C) sulphurous water of the marsh Sippenauer Moor near Regensburg, Bavaria, Germany. It consists of the bacterial genus Thiothrix, th...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Koch M,Rudolph C,Moissl C,Huber R

    更新日期:2006-07-01 00:00:00

  • Effects of selected root exudate components on soil bacterial communities.

    abstract::Low-molecular-weight organic compounds in root exudates play a key role in plant-microorganism interactions by influencing the structure and function of soil microbial communities. Model exudate solutions, based on organic acids (OAs) (quinic, lactic, maleic acids) and sugars (glucose, sucrose, fructose), previously i...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Shi S,Richardson AE,O'Callaghan M,DeAngelis KM,Jones EE,Stewart A,Firestone MK,Condron LM

    更新日期:2011-09-01 00:00:00

  • Soil microbial composition varies in response to coffee agroecosystem management.

    abstract::Soil microbes are essential to the continued productivity of sustainably managed agroecosystems. In shade coffee plantations, the relationship between soil microbial composition, soil nutrient availability and coffee productivity have been demonstrated, but the effects of management on the composition of the soil micr...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Jurburg SD,Shek KL,McGuire K

    更新日期:2020-09-01 00:00:00

  • Shift of hindgut microbiota and microbial short chain fatty acids profiles in dairy calves from birth to pre-weaning.

    abstract::This study aimed to characterize mucosa- and digesta-associated microbiota in the hindgut (cecum, colon and rectum) of newborn (NB, n = 6), day 7 (n = 6), day 21 (n = 6) and day 42 (n = 6) Holstein bull calves using amplicon sequencing. The hindgut microbiota was diverse at birth, and mucosa-attached microbial communi...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Song Y,Malmuthuge N,Steele MA,Guan LL

    更新日期:2018-03-01 00:00:00

  • Spatial distribution of protists in the presence of macroaggregates in a marine system.

    abstract::The spatial distribution of marine protistan communities in the presence of organic macroaggregates, formed from natural seawater, was studied in several microcosm experiments. The presence of macroaggregates had two main effects. First, the size of the communities of bacteria, flagellates and ciliates increased, as t...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Artolozaga I I,Ayo B,Latatu A,Azúa I I,Unanue M,Iriberri J

    更新日期:2000-09-01 00:00:00

  • Strong linkage between plant and soil fungal communities along a successional coastal dune system.

    abstract::Complex interactions between plants and soil microorganisms drive key ecosystem and community properties such as productivity and diversity. In nutrient-poor systems such as sand dunes, plant traits and fungal symbioses related to nutrient acquisition can strongly influence vegetation dynamics. We investigated plant a...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Roy-Bolduc A,Laliberté E,Boudreau S,Hijri M

    更新日期:2016-10-01 00:00:00

  • Unveiling the fungal mycobiota present throughout the cork stopper manufacturing process.

    abstract::A particular fungal population is present in the main stages of the manufacturing process of cork discs. Its diversity was studied using both dependent (isolation) and independent culture methods (denaturing gel gradient electrophoresis and cloning of the ITS1-5.8S-ITS2 region). The mycobiota in the samples taken in t...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Barreto MC,Houbraken J,Samson RA,Brito D,Gadanho M,San Romão MV

    更新日期:2012-10-01 00:00:00

  • Molecular diversity of diazotrophs in oligotrophic tropical seagrass bed communities.

    abstract::Denaturing gradient gel electrophoresis (DGGE) was employed to resolve PCR-amplified nifH sequences from vegetated and unvegetated sediments from two oligotrophic seagrass bed sites on San Salvador Island, Bahamas, in order to assess diazotroph species composition. All DGGE profiles from these sites showed the same pr...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Bagwell CE,Rocque JR,Smith GW,Polson SW,Friez MJ,Longshore JW,Lovell CR

    更新日期:2002-02-01 00:00:00

  • Microbial composition of biofilms associated with lithifying rubble of Acropora palmata branches.

    abstract::Coral reefs are among the most productive ecosystems on the planet, but are rapidly declining due to global-warming-mediated changes in the oceans. Particularly for the Caribbean region, Acropora sp. stony corals have lost ∼80% of their original coverage, resulting in vast extensions of dead coral rubble. We analyzed ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Beltrán Y,Cerqueda-García D,Taş N,Thomé PE,Iglesias-Prieto R,Falcón LI

    更新日期:2016-01-01 00:00:00

  • An emerging view of the diversity, ecology and function of Archaea in alkaline hydrothermal environments.

    abstract::The described diversity within the domain Archaea has recently expanded due to advances in sequencing technologies, but many habitats that likely harbor novel lineages of archaea remain understudied. Knowledge of archaea within natural and engineered hydrothermal systems, such as hot springs and engineered subsurface ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Mueller RC,Peach JT,Skorupa DJ,Copié V,Bothner B,Peyton BM

    更新日期:2021-01-26 00:00:00

  • Lysogens and free viruses in fresh, brackish, and marine waters: a Bayesian analysis.

    abstract::A yearlong study was conducted to determine factors that affect the abundance and distribution of lysogens and free viruses at fresh-, brackish-, and saltwater stations in Newport Bay, CA. The viral and bacterial abundance were highest in the freshwater (average 1.1 x 10(8) and 1.1 x 10(7) mL(-1), respectively) and lo...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Choi S,Jeliazkov I,Jiang SC

    更新日期:2009-08-01 00:00:00

  • Microbial indicators are better predictors of wheat yield and quality than N fertilization.

    abstract::In view of their key roles in many soil- and plant-related processes, we hypothesized that soil microorganisms could play a larger role in determining wheat baking quality than nitrogen fertilization. A field experiment was conducted under bread wheat production conditions, where different fertilization treatments, ra...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Yergeau É,Quiza L,Tremblay J

    更新日期:2020-02-01 00:00:00

  • Spatial and taxonomical overlap of fungi on phylloplanes and invasive alien ladybirds with fungal infections in tree crowns of urban green spaces.

    abstract::Occurrence of entomopathogenic fungi on phylloplanes in Tilia × europaea crowns between 1 and 13 m was assessed in urban parks. Prevalence of fungal infections in ladybirds (Coleoptera: Coccinellidae) collected from Tilia × europaea was assessed to determine whether fungi found on phylloplanes also occurred as infecti...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Howe AG,Ravn HP,Jensen AB,Meyling NV

    更新日期:2016-09-01 00:00:00

  • Unraveling microbial ecology of industrial-scale Kombucha fermentations by metabarcoding and culture-based methods.

    abstract::Kombucha, historically an Asian tea-based fermented drink, has recently become trendy in Western countries. Producers claim it bears health-enhancing properties that may come from the tea or metabolites produced by its microbiome. Despite its long history of production, microbial richness and dynamics have not been fu...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Coton M,Pawtowski A,Taminiau B,Burgaud G,Deniel F,Coulloumme-Labarthe L,Fall A,Daube G,Coton E

    更新日期:2017-05-01 00:00:00

  • Poly-3-hydroxybutyrate (PHB) supports survival and reproduction in starving rhizobia.

    abstract::The carbon that rhizobia in root nodules receive from their host powers both N(2) fixation, which mainly benefits the host, and rhizobium reproduction. Rhizobia also store energy in the lipid poly-3-hydroxybutyrate (PHB), which may enhance rhizobium survival when they are carbon limited, either in nodules or in the so...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Ratcliff WC,Kadam SV,Denison RF

    更新日期:2008-09-01 00:00:00

  • Shift in antibiotic resistance gene profiles associated with nanosilver during wastewater treatment.

    abstract::This study investigated the response of antibiotic resistance genes (ARGs) to nanosilver (Ag) in lab-scale nitrifying sequencing batch reactors (SBRs), compared to Ag(+)-dosed and undosed controls. Quantitative polymerase chain reaction (q-PCR) targeting sul1, tet(O), ermB and the class I integron gene intI1 and corre...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Ma Y,Metch JW,Yang Y,Pruden A,Zhang T

    更新日期:2016-03-01 00:00:00

  • Relationship between dissolved organic matter quality and microbial community composition across polar glacial environments.

    abstract::Vast expanses of Earth's surface are covered by ice, with microorganisms in these systems affecting local and global biogeochemical cycles. We examined microbial assemblages from habitats fed by glacial meltwater within the McMurdo Dry Valleys, Antarctica and on the west Greenland Ice Sheet (GrIS), evaluating potentia...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Smith HJ,Dieser M,McKnight DM,SanClements MD,Foreman CM

    更新日期:2018-07-01 00:00:00

  • Pezizomycotina dominates the fungal communities of South China Sea sponges Theonella swinhoei and Xestospongia testudinaria.

    abstract::Compared with the knowledge of sponge-associated bacterial diversity and ecological roles, the fungal diversity and ecological roles of sponges remain largely unknown. In this study, the fungal diversity and protein synthesis potential in two South China Sea sponges Theonella swinhoei and Xestospongia testudinaria wer...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Jin L,Liu F,Sun W,Zhang F,Karuppiah V,Li Z

    更新日期:2014-12-01 00:00:00

  • Stable symbionts across the HMA-LMA dichotomy: low seasonal and interannual variation in sponge-associated bacteria from taxonomically diverse hosts.

    abstract::Marine sponges host bacterial communities with important ecological and economic roles in nature and society, yet these benefits depend largely on the stability of host-symbiont interactions and their susceptibility to changing environmental conditions. Here, we investigated the temporal stability of complex host-micr...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Erwin PM,Coma R,López-Sendino P,Serrano E,Ribes M

    更新日期:2015-10-01 00:00:00

  • Evaluation of terminal-restriction fragment length polymorphism analysis in contrasting marine environments.

    abstract::Terminal-restriction fragment length polymorphism (T-RFLP) analysis is widely used in microbial ecology studies. In the present study, T-RFLP analysis of PCR products digested by five restriction enzymes (AluI, HaeIII, MspI, Sau3AI and TaqI) was applied for 20 samples from three contrasting coastal environments to ass...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Zhang R,Thiyagarajan V,Qian PY

    更新日期:2008-07-01 00:00:00

  • Genomic characterization of Dehalococcoides mccartyi strain 11a5 reveals a circular extrachromosomal genetic element and a new tetrachloroethene reductive dehalogenase gene.

    abstract::Dehalococcoides mccartyi exhibits versatile capabilities to respire halogenated compounds under anaerobic conditions. In this study, we report the assembly and annotation of the complete genome of a chloroethene dechlorinating D. mccartyi strain 11a5. Bearing a 1461 973 base-pair chromosome, strain 11a5 distinguishes ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Zhao S,Ding C,He J

    更新日期:2017-04-01 00:00:00

  • Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus).

    abstract::Metagenomics combined with 16S rRNA gene sequence analyses was applied to unveil the taxonomic composition and functional diversity of the farmed adult turbot gastrointestinal (GI) microbiome. Proteobacteria and Firmicutes which existed in both GI content and mucus were dominated in the turbot GI microbiome. 16S rRNA ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Xing M,Hou Z,Yuan J,Liu Y,Qu Y,Liu B

    更新日期:2013-12-01 00:00:00

  • Diet shapes the gut microbiota of the omnivorous cockroach Blattella germanica.

    abstract::The gut microbiota of insects contributes positively to the physiology of its host mainly by participating in food digestion, protecting against pathogens, or provisioning vitamins or amino acids, but the dynamics of this complex ecosystem is not well understood so far. In this study, we have characterized the gut mic...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Pérez-Cobas AE,Maiques E,Angelova A,Carrasco P,Moya A,Latorre A

    更新日期:2015-04-01 00:00:00

  • Comparison of the molecular diversity of the methanogenic community at the brackish and marine ends of a UK estuary.

    abstract::Abstract The 16S rRNA sequence diversity of the euryarchaeal community in a predominately freshwater sediment at East Hill Bridge (EHB) on the River Colne estuary, Essex, UK was investigated and compared to that from marine sediments at the mouth of the river (Colne Point). The East Hill Bridge sediments appear to sup...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Purdy KJ,Munson MA,Nedwell DB,Martin Embley T

    更新日期:2002-01-01 00:00:00

  • Succession in the intestinal microbiota of preadolescent turkeys.

    abstract::In the present study, automated ribosomal intergenic spacer analysis (ARISA), library sequence analysis, real-time PCR detection of Bacteroides uniformis and Campylobacter coli and dot-blot hybridizations of Clostridiaceae were used to identify trends in microbial colonization of the ceca of male turkeys. Two separate...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Scupham AJ

    更新日期:2007-04-01 00:00:00

  • Microbial diversity associated with the hydrothermal shrimp Rimicaris exoculata gut and occurrence of a resident microbial community.

    abstract::Rimicaris exoculata dominates the megafauna of several Mid-Atlantic Ridge hydrothermal sites. Its gut is full of sulphides and iron-oxide particles and harbours microbial communities. Although a trophic symbiosis has been suggested, their role remains unclear. In vivo starvation experiments in pressurized vessels were...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Durand L,Zbinden M,Cueff-Gauchard V,Duperron S,Roussel EG,Shillito B,Cambon-Bonavita MA

    更新日期:2010-02-01 00:00:00

  • Photosynthetic capacity of the endosymbiotic dinoflagellate Cladocopium sp. is preserved during digestion of its jellyfish host Mastigias papua by the anemone Entacmaea medusivora.

    abstract::The sea anemone Entacmaea medusivora (Actiniaria, Anthozoa) commonly feeds on the golden jellyfish Mastigias papua (Rhizostomeae, Scyphozoa) which harbours an endosymbiotic dinoflagellate of the genus Cladocopium (Symbiodiniaceae). In this study, we monitored the photosynthetic activity of the endosymbiotic microalgae...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Vega de Luna F,Dang KV,Cardol M,Roberty S,Cardol P

    更新日期:2019-10-01 00:00:00

  • Diversity and function of soil microbes on montane gradients: the state of knowledge in a changing world.

    abstract::Mountains have a long history in the study of diversity. Like macroscopic taxa, soil microbes are hypothesized to be strongly structured by montane gradients, and recently there has been important progress in understanding how microbes are shaped by these conditions. Here, we summarize this literature and synthesize p...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Looby CI,Martin PH

    更新日期:2020-09-01 00:00:00

  • Altering the mineral composition of soil causes a shift in microbial community structure.

    abstract::This study tests the hypothesis that altering the mineral composition of soil influences microbial community structure in a nutrient-deficient soil. Microcosms were established by adding mica (M), basalt (B) and rock phosphate (P) to soil separately, and in combination (MBP), and by planting with Lolium rigidum, Trifo...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Carson JK,Rooney D,Gleeson DB,Clipson N

    更新日期:2007-09-01 00:00:00

  • Summer distribution and diversity of aerobic anoxygenic phototrophic bacteria in the Mediterranean Sea in relation to environmental variables.

    abstract::Aerobic anoxygenic phototrophic bacteria (AAP) represent an important fraction of bacterioplankton assemblages in various oceanic regimes. Although their abundance and distribution have been explored recently in diverse oceanic regions, the environmental factors controlling the population structure and diversity of th...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Lehours AC,Cottrell MT,Dahan O,Kirchman DL,Jeanthon C

    更新日期:2010-11-01 00:00:00